SNP Report

Basic Info

Name	rs1938540 dbSNP Ensembl
Location	chr10:60535056 - 60535056(1)
Variant Alleles	C/T
Ancestral Allele	C
Minor Allele	T
Minor Allele Frequence	0.146565
Functional Annotation	intron_variant; NMD_transcript_variant; non_coding_transcript_variant.
Consequence to Transcript	intron_variant(ENST00000373827, ENST00000503366, ENST00000510382, ENST00000622427); NMD_transcript_variant(ENST00000622427); non_coding_transcript_variant(ENST00000510382)
No. of Studies	1 (Positive: 1; Negative: 0; Trend: 0)
Source	Literature
Overlap with SZ?	NO
Overlap with MDD?	NO

SNP related studies (count: 1)

Reference	Allele Change	Risk Allele	Statistical Values	Author Comments	Result Category
Muhleisen, T. W., 2014	T/C	T	MooDS: P-value=0.0317, OR= 1.15; PGC: P-value=1.90E-9, OR=1....... MooDS: P-value=0.0317, OR= 1.15; PGC: P-value=1.90E-9, OR=1.32; MooDS-PGC: P-value=5.85E-10, adjusted P-value=8.22E-10, OR=1.27 More...	Eighteen GWAS SNPs showing genome-wide evidence for associat...... Eighteen GWAS SNPs showing genome-wide evidence for association with BD in the combined MooDS and PGC samples. More...	Positive

SNP related genes (count: 1)

Approved Symbol	Approved Name	Location	No. of Studies (Positive/Negative/Trend)
ANK3	ankyrin 3, node of Ranvier (ankyrin G)	10q21	17(13/3/1)

SNPs in LD with rs1938540 (count: 3) View in gBrowse (chr10:60523076..60535056 )

The LD data used here is based on HapMap rel#27. LD SNP pairs were selected with a threshold r²<=0.8.

rs_ID	Functional Annotation	r²[population]
rs10994404	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.88[CEU]
rs12412135	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.88[CEU]
rs10821789	intron_variant; NMD_transcript_variant; non_coding_transcript_variant	0.88[CEU]

Overlap with SZ from cross-disorder studies (count: 0)

Overlap with MDD from cross-disorder studies (count: 0)